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UniProtKB - P0C600 (RISB_STAAU)

Entry version 63 (13 Nov 2019)
Sequence version 1 (15 Jan 2008)
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Protein

6,7-dimethyl-8-ribityllumazine synthase

Gene

ribH

Organism
Staphylococcus aureus
Status
Reviewed-Annotation score:

Annotation score:3 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Catalyzes the formation of 6,7-dimethyl-8-ribityllumazine by condensation of 5-amino-6-(D-ribitylamino)uracil with 3,4-dihydroxy-2-butanone 4-phosphate. This is the penultimate step in the biosynthesis of riboflavin.UniRule annotation

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: riboflavin biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes riboflavin from 2-hydroxy-3-oxobutyl phosphate and 5-amino-6-(D-ribitylamino)uracil.UniRule annotation
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH_1), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (CSC87_17985), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH), 6,7-dimethyl-8-ribityllumazine synthase (ribH)
  2. no protein annotated in this organism
This subpathway is part of the pathway riboflavin biosynthesis, which is itself part of Cofactor biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes riboflavin from 2-hydroxy-3-oxobutyl phosphate and 5-amino-6-(D-ribitylamino)uracil, the pathway riboflavin biosynthesis and in Cofactor biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei215-amino-6-(D-ribitylamino)uracilUniRule annotation1
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei87Proton donorUniRule annotation1
Binding sitei1125-amino-6-(D-ribitylamino)uracil; via amide nitrogen and carbonyl oxygenUniRule annotation1
Binding sitei1261-deoxy-L-glycero-tetrulose 4-phosphateUniRule annotation1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionTransferase
Biological processRiboflavin biosynthesis

Enzyme and pathway databases

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...UniPathwayi		UPA00275;UER00404

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
6,7-dimethyl-8-ribityllumazine synthaseUniRule annotation (EC:2.5.1.78UniRule annotation)
Short name:
DMRL synthaseUniRule annotation
Short name:
LSUniRule annotation
Short name:
Lumazine synthaseUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:ribHUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiStaphylococcus aureus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri1280 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiBacteria › Firmicutes › Bacilli › Bacillales › Staphylococcaceae › Staphylococcus

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Complete GO annotation on QuickGO ...

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001348091 – 1546,7-dimethyl-8-ribityllumazine synthaseAdd BLAST154

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Forms an icosahedral capsid composed of 60 subunits, arranged as a dodecamer of pentamers.

UniRule annotation

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		P0C600

Database of comparative protein structure models

More...ModBasei		Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni55 – 575-amino-6-(D-ribitylamino)uracil bindingUniRule annotation3
Regioni79 – 815-amino-6-(D-ribitylamino)uracil bindingUniRule annotation3
Regioni84 – 851-deoxy-L-glycero-tetrulose 4-phosphate bindingUniRule annotation2

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the DMRL synthase family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4108UTT Bacteria
COG0054 LUCA

Family and domain databases

Conserved Domains Database

More...CDDi		cd09209 Lumazine_synthase-I, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.50.960, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_00178 Lumazine_synth, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR034964 LS
IPR002180 LS/RS
IPR036467 LS/RS_sf

The PANTHER Classification System

More...PANTHERi		PTHR21058 PTHR21058, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00885 DMRL_synthase, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF52121 SSF52121, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00114 lumazine-synth, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P0C600-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MNFEGKLIGK DLKVAIVVSR FNDFITGRLL EGAKDTLIRH DVNEDNIDVA 
        60         70         80         90        100
FVPGAFEIPL VAKKLASSGN YDAIITLGCV IRGATSHYDY VCNEVAKGVS 
       110        120        130        140        150
KVNDQTNVPV IFGILTTESI EQAVERAGTK AGNKGAEAAV SAIEMANLLK 

SIKA
Length:154
Mass (Da):16,410
Last modified:January 15, 2008 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:iBC6AD39B6431BF44
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
AJ564301 Genomic DNA Translation: CAD91963.1
AJ564302 Genomic DNA Translation: CAD91964.1
AJ564303 Genomic DNA Translation: CAD91965.1
AJ564304 Genomic DNA Translation: CAD91966.1
AJ564305 Genomic DNA Translation: CAD91967.1
AJ564306 Genomic DNA Translation: CAD91968.1
AJ564307 Genomic DNA Translation: CAD91969.1
AJ564308 Genomic DNA Translation: CAD91970.1
AJ564309 Genomic DNA Translation: CAD91971.1
AJ564310 Genomic DNA Translation: CAD91972.1
AJ564311 Genomic DNA Translation: CAD91973.1
AJ564312 Genomic DNA Translation: CAD91974.1
AJ564313 Genomic DNA Translation: CAD91975.1
AJ564314 Genomic DNA Translation: CAD91976.1
AJ564315 Genomic DNA Translation: CAD91977.1
AJ564316 Genomic DNA Translation: CAD91978.1
AJ564317 Genomic DNA Translation: CAD91979.1
AJ564318 Genomic DNA Translation: CAD91980.1
AJ564319 Genomic DNA Translation: CAD91981.1
AJ564320 Genomic DNA Translation: CAD91982.1
AJ564321 Genomic DNA Translation: CAD91983.1
AJ564322 Genomic DNA Translation: CAD91984.1
AJ564323 Genomic DNA Translation: CAD91985.1
AJ564324 Genomic DNA Translation: CAD91986.1
AJ564325 Genomic DNA Translation: CAD91987.1
AJ564326 Genomic DNA Translation: CAD91988.1
AJ564327 Genomic DNA Translation: CAD91989.1
AJ564328 Genomic DNA Translation: CAD91990.1
AJ564329 Genomic DNA Translation: CAD91991.1
AJ564330 Genomic DNA Translation: CAD91992.1

NCBI Reference Sequences

More...RefSeqi		WP_001008549.1, NZ_VSZH01000105.1

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ564301 Genomic DNA Translation: CAD91963.1
AJ564302 Genomic DNA Translation: CAD91964.1
AJ564303 Genomic DNA Translation: CAD91965.1
AJ564304 Genomic DNA Translation: CAD91966.1
AJ564305 Genomic DNA Translation: CAD91967.1
AJ564306 Genomic DNA Translation: CAD91968.1
AJ564307 Genomic DNA Translation: CAD91969.1
AJ564308 Genomic DNA Translation: CAD91970.1
AJ564309 Genomic DNA Translation: CAD91971.1
AJ564310 Genomic DNA Translation: CAD91972.1
AJ564311 Genomic DNA Translation: CAD91973.1
AJ564312 Genomic DNA Translation: CAD91974.1
AJ564313 Genomic DNA Translation: CAD91975.1
AJ564314 Genomic DNA Translation: CAD91976.1
AJ564315 Genomic DNA Translation: CAD91977.1
AJ564316 Genomic DNA Translation: CAD91978.1
AJ564317 Genomic DNA Translation: CAD91979.1
AJ564318 Genomic DNA Translation: CAD91980.1
AJ564319 Genomic DNA Translation: CAD91981.1
AJ564320 Genomic DNA Translation: CAD91982.1
AJ564321 Genomic DNA Translation: CAD91983.1
AJ564322 Genomic DNA Translation: CAD91984.1
AJ564323 Genomic DNA Translation: CAD91985.1
AJ564324 Genomic DNA Translation: CAD91986.1
AJ564325 Genomic DNA Translation: CAD91987.1
AJ564326 Genomic DNA Translation: CAD91988.1
AJ564327 Genomic DNA Translation: CAD91989.1
AJ564328 Genomic DNA Translation: CAD91990.1
AJ564329 Genomic DNA Translation: CAD91991.1
AJ564330 Genomic DNA Translation: CAD91992.1
RefSeqiWP_001008549.1, NZ_VSZH01000105.1

3D structure databases

SMRiP0C600
ModBaseiSearch...

Phylogenomic databases

eggNOGiENOG4108UTT Bacteria
COG0054 LUCA

Enzyme and pathway databases

UniPathwayiUPA00275;UER00404

Family and domain databases

CDDicd09209 Lumazine_synthase-I, 1 hit
Gene3Di3.40.50.960, 1 hit
HAMAPiMF_00178 Lumazine_synth, 1 hit
InterProiView protein in InterPro
IPR034964 LS
IPR002180 LS/RS
IPR036467 LS/RS_sf
PANTHERiPTHR21058 PTHR21058, 1 hit
PfamiView protein in Pfam
PF00885 DMRL_synthase, 1 hit
SUPFAMiSSF52121 SSF52121, 1 hit
TIGRFAMsiTIGR00114 lumazine-synth, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiRISB_STAAU
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P0C600
Secondary accession number(s): P61596
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: January 15, 2008
Last modified: November 13, 2019
This is version 63 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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